摘要
目的生物信息学方法筛选miRNA用于原发性肝癌的早期诊断。方法从肿瘤基因组数据库TCGA下载原发性肝癌组织miRNA表达情况数据,成组t检验进行miRNA表达水平的比较,获得表达水平差异2倍以上的miRNA。靶点预测工具miRWalk2.0分析上述miRNA的靶基因,c-Bioportal数据库获取原发性肝癌常见突变基因,miRNA靶基因中含有肝癌突变基因者定为备选,结合文献报道确定目标miRNA。结果 TCGA数据包含原发性肝癌组织372例,正常对照肝组织50例,共有1 881条miRNA序列,肝癌组织中表达升高至2倍以上的miRNA有41个,降低至1/2以下的miRNA有115个。c-Bioportal数据库获得原发性肝癌突变基因68个(发生率>5%)。结论基于TCGA数据库的生物信息学方法可简便而可靠地筛选目标miRNA进行后续研究,有较高的推广价值。
Objective To screen miRNAs by bioinformatics for the early diagnostic tests of primary liver cancer.Methods The data of miRNA expression in primary liver cancer tissues were downloaded from the Cancer Genome Atlas（ TCGA） database. The expression levels of miRNAs were compared by grouped t-test. miRNAs with a significantly difference of more than 2-time expression levels were enrolled. Target genes of enrolled miRNAs were analyzed based on the miRNA-target analysis tool miRWalk 2. 0,and common mutation genes related to primary liver cancer were acquired from c-Bioportal database. MiRNAs whose target genes contained liver cancer related mutation gene were selected,some of which were identified as target miRNAs combined with literature reports. Results The TCGA data included 372 cases of primary liver cancer tissues and 50 cases of normal liver tissues with 1 881 miRNA detected. Forty-one miRNAs increased to more than 2 times in liver cancer tissues,and 115 decreased to more than 1/2. Sixty-eight common mutant genes of primary liver cancer（ incidence 5%） were obtained from the c-Bioportal. Conclusion The bioinformatics method based on TCGA database can easily and reliably screen target miRNAs for follow-up study,which has high popularization value.
作者
赵西太
聂青和
ZHAO Xitai;NIE Qinghe(Department of hffectious Diseases,Chinese PLA Center of Diagnosis and Treatment for hffectious Diseases,Tangdu Hospital,the Fourth Military Medical University,Xi＇an 710038,China)
出处
《胃肠病学和肝病学杂志》
CAS
2018年第6期609-612,共4页
Chinese Journal of Gastroenterology and Hepatology
